Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2243
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 246073
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:161 original size:20 final size:20
Alignment explanation
Indices: 148--203 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
138 ACATTTAAGC
*
148 ATGTGTCGATACATTTACTT
1 ATGTATCGATACATTTACTT
168 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
188 ATGTATCGATACATTT
1 ATGTATCGATACATTT
204 CTTTTCTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:182 original size:40 final size:40
Alignment explanation
Indices: 128--203 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
118 TACATGAGAA
* *
128 ATGTATTGACACATTTAAGCATGTGTCGATACATTTACTT
1 ATGTATCGACACATTTAAGCATGTATCGATACATTTACTT
* ***
168 ATGTATCGATACATTTACTTATGTATCGATACATTT
1 ATGTATCGACACATTTAAGCATGTATCGATACATTT
204 CTTTTCTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (40 bp):
ATGTATCGACACATTTAAGCATGTATCGATACATTTACTT
Found at i:4571 original size:34 final size:34
Alignment explanation
Indices: 4528--4637 Score: 96
Period size: 34 Copynumber: 3.2 Consensus size: 34
4518 AATAGCTCCA
* *
4528 GCAAAGAGGCAGCACCTAATAGCAG-TATGGAGCT
1 GCAAAGAGGCAGCACCGAACAGCAGCT-TGGAGCT
*
4562 GCAAAGAGGCAGCATCGAACAGCAGCTTGGAGCT
1 GCAAAGAGGCAGCACCGAACAGCAGCTTGGAGCT
* *** * * *
4596 ACAAAGCAATAAGCATCAAACAGCAGCATGGAGCT
1 GCAAAG-AGGCAGCACCGAACAGCAGCTTGGAGCT
*
4631 GTAAAGA
1 GCAAAGA
4638 AACAGGAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
34 35 0.56
35 28 0.44
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (34 bp):
GCAAAGAGGCAGCACCGAACAGCAGCTTGGAGCT
Found at i:5985 original size:12 final size:11
Alignment explanation
Indices: 5949--5982 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
5939 ATCCAAAACC
*
5949 ATTTTTCATGA
1 ATTTTTCTTGA
*
5960 ATTTTTCTAGA
1 ATTTTTCTTGA
5971 ATTTTTCTTGA
1 ATTTTTCTTGA
5982 A
1 A
5983 ATTGTGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (11 bp):
ATTTTTCTTGA
Found at i:6778 original size:98 final size:97
Alignment explanation
Indices: 6656--6891 Score: 364
Period size: 98 Copynumber: 2.4 Consensus size: 97
6646 GGTGATACTC
* * * *
6656 CCAACCCTATTCCTTCGAGAGGATACTCTAACCCCACTTTTAAACACATCAAAGTTTAAATCTTA
1 CCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTA
*
6721 TTCTTACTTAAATTGTCCATCATCGAGGACACT
66 TTCTCACTTAAATTGT-CATCATCGAGGACACT
***
6754 CCAACCCCATTCCTCCGAGGGGATACTCCAACCTTGCTTTTAAACACATCAAAGTTTAAATCTTA
1 CCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTA
*
6819 TTCTCACTTAAATTGTCATCATCGGGGACACT
66 TTCTCACTTAAATTGTCATCATCGAGGACACT
* *
6851 CCAACCCCATTCTTCCGAGGGGATACTCCAACCCCATTTTT
1 CCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTT
6892 CAATAAAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 51 0.41
98 73 0.59
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (97 bp):
CCAACCCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACACATCAAAGTTTAAATCTTA
TTCTCACTTAAATTGTCATCATCGAGGACACT
Found at i:12638 original size:22 final size:23
Alignment explanation
Indices: 12604--12648 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
12594 GGGATCGAAA
12604 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
12626 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
12649 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:13041 original size:11 final size:11
Alignment explanation
Indices: 13003--13043 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
12993 AAATTTAGGT
13003 AAAAAAGAAAG
1 AAAAAAGAAAG
*
13014 AAAGAAGATGAAG
1 AAAAAAGA--AAG
13027 AAAAAAGAAAG
1 AAAAAAGAAAG
13038 AAAAAA
1 AAAAAA
13044 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:13207 original size:80 final size:80
Alignment explanation
Indices: 13074--13230 Score: 314
Period size: 80 Copynumber: 2.0 Consensus size: 80
13064 GGGATTTGAA
13074 CCCAGGCCACCCATAATGAAAAACAACCCTTAACCATTTTGCCAAGTTCATTTCTTGATTAAAAA
1 CCCAGGCCACCCATAATGAAAAACAACCCTTAACCATTTTGCCAAGTTCATTTCTTGATTAAAAA
13139 TTACCAAAACAGAAT
66 TTACCAAAACAGAAT
13154 CCCAGGCCACCCATAATGAAAAACAACCCTTAACCATTTTGCCAAGTTCATTTCTTGATTAAAAA
1 CCCAGGCCACCCATAATGAAAAACAACCCTTAACCATTTTGCCAAGTTCATTTCTTGATTAAAAA
13219 TTACCAAAACAG
66 TTACCAAAACAG
13231 TTATTTAACT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (80 bp):
CCCAGGCCACCCATAATGAAAAACAACCCTTAACCATTTTGCCAAGTTCATTTCTTGATTAAAAA
TTACCAAAACAGAAT
Found at i:20955 original size:30 final size:31
Alignment explanation
Indices: 20915--20972 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
20905 GTACTGTGAC
*
20915 CTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 CTTTTCAAAGTCCACAACTCAGTGGCATTTT
*
20946 CTTTT-AAAGTCCACAACTCCGTGGCAT
1 CTTTTCAAAGTCCACAACTCAGTGGCAT
20973 CCTTTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (31 bp):
CTTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:21007 original size:46 final size:46
Alignment explanation
Indices: 20940--21028 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
20930 GACTCAGTGG
*
20940 CATTTTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTTCA
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTTCA
20986 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
21029 CCCCAACTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (46 bp):
CATTTTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTTCA
Found at i:21035 original size:27 final size:27
Alignment explanation
Indices: 20992--21838 Score: 1406
Period size: 27 Copynumber: 31.0 Consensus size: 27
20982 TTCACATTTT
20992 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
21020 CTTTTAAGTCCCCAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
21047 CTTTCAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21074 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21101 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
21129 TTTTTAAGTCCACAACTCCGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21156 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21183 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21210 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21237 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
21265 CTTTTAAGTCCACAACTCCGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21292 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21319 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
21347 CTTTTAAGTCCACAGCTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21374 CTTTTAAATCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
21402 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21429 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21456 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
21484 CTTTGATGTTCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
21512 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21539 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21566 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
21594 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21621 CTTTTAGGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21648 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21675 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21702 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
21730 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21757 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
21784 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
21811 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
21838 C
1 C
21839 ATTCCAAAGC
Statistics
Matches: 768, Mismatches: 44, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
27 561 0.73
28 207 0.27
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:21160 original size:82 final size:81
Alignment explanation
Indices: 20992--21838 Score: 1406
Period size: 82 Copynumber: 10.3 Consensus size: 81
20982 TTCACATTTT
* * *
20992 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCCCAACTTCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
**
21057 CACAACTCCGTGGCATT
65 CACAACTCCGTGGCACC
* *
21074 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
21139 CACAACTCCGTGGCCCC
65 CACAACTCCGTGGCACC
21156 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
21221 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
*
21237 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21302 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * *
21319 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAATC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21384 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
21402 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
21467 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* * *
21484 CTTTGATGTTCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21549 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
21566 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTCCGTGGCACCCTTTTAGGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21631 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
21648 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
21713 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
21730 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
21795 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* *
21811 CTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCC
21839 ATTCCAAAGC
Statistics
Matches: 722, Mismatches: 38, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
81 173 0.24
82 468 0.65
83 81 0.11
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:21187 original size:109 final size:108
Alignment explanation
Indices: 20992--21838 Score: 1406
Period size: 109 Copynumber: 7.8 Consensus size: 108
20982 TTCACATTTT
* * *
20992 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCCCAACTTCGTGGCACCCTTTCAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
** *
21057 CACAACTCCGTGGCATTCTTTTAAGTCCACAACTCTGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
21101 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21166 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
21210 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
21275 CACAACTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
21319 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAGCTCCGTGGCATCCTTTTAAATC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
21384 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
21429 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTGATGTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
21494 CACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
21539 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
21604 CACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
21648 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTC
21713 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
21757 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
21822 ACAACTCTGTGGCACCC
66 ACAACTCCGTGGCACCC
21839 ATTCCAAAGC
Statistics
Matches: 697, Mismatches: 35, Indels: 13
0.94 0.05 0.02
Matches are distributed among these distances:
108 72 0.10
109 416 0.60
110 209 0.30
ACGTcount: A:0.22, C:0.36, G:0.15, T:0.28
Consensus pattern (108 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:21879 original size:32 final size:32
Alignment explanation
Indices: 21821--22804 Score: 1327
Period size: 32 Copynumber: 31.8 Consensus size: 32
21811 CTTTTAAATC
* * *
21821 CACAACTCTGTGGC-ACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
21852 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
21884 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
21914 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
21944 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
21972 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22000 CACAAGTCGGTGGCAATCTATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
22030 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22060 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22092 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
22124 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22156 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22188 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22219 CATAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22251 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22283 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
22313 CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22343 CACAAGTTGGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22371 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
22399 CACAAGTCGGTGGCAATCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
22429 CACAAGTTAGTGGC-A-TCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22459 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22491 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
22523 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22555 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22587 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
22618 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22650 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
22682 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22714 CACAAGTCGGTGGCGACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
22746 CACAAGTCGGGGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** ** *
22778 TGCAAGTTAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
22805 TCACCATTTT
Statistics
Matches: 870, Mismatches: 62, Indels: 41
0.89 0.06 0.04
Matches are distributed among these distances:
28 113 0.13
29 23 0.03
30 136 0.16
31 80 0.09
32 518 0.60
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:22573 original size:399 final size:399
Alignment explanation
Indices: 21830--22752 Score: 1758
Period size: 399 Copynumber: 2.3 Consensus size: 399
21820 CCACAACTCT
21830 GTGGC-ACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
21894 TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGTCCACACAAGTTGGTGGCA
66 TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGTCCACACAAGTTGGTGGCA
*
21959 TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAATCTATTTC
131 TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAATCCATTTC
22024 AAAGCCCACAAGTTAGTGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
196 AAAGCCCACAAGTTAGTGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
22089 CCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCC
261 CCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCC
22154 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
326 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
22219 CATAAGTCG
391 CATAAGTCG
22228 GTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
22293 TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGTCCACACAAGTTGGTGGCA
66 TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGTCCACACAAGTTGGTGGCA
22358 TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAATCCATTTC
131 TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAATCCATTTC
22423 AAAGCCCACAAGTTAGTGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
196 AAAGCCCACAAGTTAGTGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
22488 CCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCC
261 CCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCC
22553 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
326 CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
22618 CATAAGTCG
391 CATAAGTCG
*
22627 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
1 GTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
* * *
22692 TGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCGACCCTTTTCAAAGCCCACACAAGT
66 TGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCACACAAGT
22753 CGGGGGCAAC
Statistics
Matches: 515, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
398 5 0.01
399 474 0.92
400 2 0.00
401 13 0.03
402 1 0.00
403 20 0.04
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (399 bp):
GTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGG
TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGTCCACACAAGTTGGTGGCA
TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAATCCATTTC
AAAGCCCACAAGTTAGTGGCATCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
CCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCC
CACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCACCCATTTCAAAGCCCA
CATAAGTCG
Found at i:22888 original size:45 final size:47
Alignment explanation
Indices: 22837--22955 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 47
22827 GTCCGATATT
*
22837 GCTGGCCTTGAATCAGCATATTGG-CACCTTT-CTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
* * * *
22882 GCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCTTAGCCCGATGTC
1 GCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCTAAGCCCAATGTC
* *
22931 GCTGACCTTGAAAT-GGCACATTGGC
1 GCTGGCCTTG-AATCAGCACATTGGC
22956 ATTCCTCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 22 0.36
47 6 0.10
48 1 0.02
49 30 0.49
50 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (47 bp):
GCTGGCCTTGAATCAGCACATTGGCCACCTTTCCTAAGCCCAATGTC
Found at i:23676 original size:22 final size:23
Alignment explanation
Indices: 23642--23686 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
23632 ATCGAAAAAA
23642 AAAAAAAAAAAAG-GGGCTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
** *
23664 AAAAAAACCAAAGTGGGTTTTCC
1 AAAAAAAAAAAAGTGGGCTTTCC
23687 GATTGAGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAAAAAAAAAAGTGGGCTTTCC
Found at i:24079 original size:11 final size:11
Alignment explanation
Indices: 24041--24081 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
24031 AAATTTAGGT
24041 AAAAAAGAAAG
1 AAAAAAGAAAG
*
24052 AAAGAAGATGAAG
1 AAAAAAGA--AAG
24065 AAAAAAGAAAG
1 AAAAAAGAAAG
24076 AAAAAA
1 AAAAAA
24082 AATATGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:32593 original size:14 final size:14
Alignment explanation
Indices: 32574--32602 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32564 CGATCTTTAA
32574 TGCATCATGCATGG
1 TGCATCATGCATGG
32588 TGCATCATGCATGG
1 TGCATCATGCATGG
32602 T
1 T
32603 CGTCATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (14 bp):
TGCATCATGCATGG
Found at i:36858 original size:54 final size:55
Alignment explanation
Indices: 36738--36847 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
36728 ATTATGATAG
* * **** *
36738 TAAATTTAAAATTATTGATAAAATATATATTTAAATGTAAAAATGGTCATAGTGA
1 TAAAGTTAGAATTATTGATAAAATATATATTTAAATGTAAAAACCACCATACTGA
*
36793 TAAAGTTAGAATTATTGATAAAATATATA-TTAAATGTAAAGACCACCATACTGA
1 TAAAGTTAGAATTATTGATAAAATATATATTTAAATGTAAAAACCACCATACTGA
36847 T
1 T
36848 GAATTGAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 20 0.43
55 27 0.57
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.35
Consensus pattern (55 bp):
TAAAGTTAGAATTATTGATAAAATATATATTTAAATGTAAAAACCACCATACTGA
Found at i:37963 original size:34 final size:34
Alignment explanation
Indices: 37917--38134 Score: 273
Period size: 34 Copynumber: 6.5 Consensus size: 34
37907 GTAAAAACCA
*
37917 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
37951 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
37985 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
38019 CCATTTAATCAACAATGATAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
38052 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
38086 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
38119 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
38135 TCTCCCACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
33 44 0.28
34 114 0.71
35 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:38091 original size:67 final size:67
Alignment explanation
Indices: 37915--38134 Score: 307
Period size: 67 Copynumber: 3.3 Consensus size: 67
37905 TGGTAAAAAC
* *
37915 CACCATTTAATCAACAATGGC-AACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCA
1 CACCATTTAATCAACAATGGCAAACC-ACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
37979 AAT
65 AAT
* * * * *
37982 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGATAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
38047 AAT
65 AAT
* * * * *
38050 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
38115 AT
66 AT
38117 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
38135 TCTCCCACTT
Statistics
Matches: 132, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 74 0.56
68 56 0.42
69 2 0.02
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:38093 original size:101 final size:101
Alignment explanation
Indices: 37915--38134 Score: 345
Period size: 101 Copynumber: 2.2 Consensus size: 101
37905 TGGTAAAAAC
* * *
37915 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
*
37980 ATCACCCATTTAATCAACAATGGTAAGCTACCAAATTT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAA--T
* *
38018 C-CCATTTAATCAACAATGATAAGCTACCAAATCT-CCATTTAGTCAACAATGGCAAACCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
*
38081 ATCACCCATTTAATCAACAATGGTAAACTACTAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
38117 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
38135 TCTCCCACTT
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
99 2 0.02
100 16 0.15
101 60 0.55
102 30 0.28
103 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:42591 original size:34 final size:34
Alignment explanation
Indices: 42545--42760 Score: 269
Period size: 34 Copynumber: 6.4 Consensus size: 34
42535 GTAAAAACCA
*
42545 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
42579 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
42613 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
42647 CCATTTAATCAACAATGATAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
42680 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
42714 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
42747 CCATTTAATCAACA
1 CCATTTAATCAACA
42761 TTTATGATTG
Statistics
Matches: 158, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
33 42 0.27
34 114 0.72
35 2 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:42719 original size:67 final size:67
Alignment explanation
Indices: 42543--42760 Score: 303
Period size: 67 Copynumber: 3.2 Consensus size: 67
42533 TGGTAAAAAC
* *
42543 CACCATTTAATCAACAATGGC-AACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCA
1 CACCATTTAATCAACAATGGCAAACC-ACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
42607 AAT
65 AAT
* * * * *
42610 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGATAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
42675 AAT
65 AAT
* * * * *
42678 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
42743 AT
66 AT
42745 CACCATTTAATCAACA
1 CACCATTTAATCAACA
42761 TTTATGATTG
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 72 0.55
68 56 0.43
69 2 0.02
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACCACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:42721 original size:101 final size:101
Alignment explanation
Indices: 42543--42760 Score: 341
Period size: 101 Copynumber: 2.2 Consensus size: 101
42533 TGGTAAAAAC
* * *
42543 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
*
42608 ATCACCCATTTAATCAACAATGGTAAGCTACCAAATTT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAA--T
* *
42646 C-CCATTTAATCAACAATGATAAGCTACCAAATCT-CCATTTAGTCAACAATGGCAAACCACCAA
1 CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
*
42709 ATCACCCATTTAATCAACAATGGTAAACTACTAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
42745 CACCATTTAATCAACA
1 CACCATTTAATCAACA
42761 TTTATGATTG
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
99 2 0.02
100 14 0.13
101 60 0.56
102 30 0.28
103 1 0.01
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (101 bp):
CACCATTTAATCAACAATGACAACCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:42887 original size:18 final size:18
Alignment explanation
Indices: 42860--42921 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
42850 TTGATGAGAT
*
42860 TAAAAATAATAATTATAA
1 TAAAATTAATAATTATAA
*
42878 TAAAATTAATTATTATAA
1 TAAAATTAATAATTATAA
42896 TAATGATATTAA-AATTAATAA
1 TAA--A-ATTAATAATT-ATAA
42917 TAAAA
1 TAAAA
42922 ATATATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 20 0.54
19 1 0.03
20 4 0.11
21 12 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAAAATTAATAATTATAA
Found at i:42924 original size:27 final size:26
Alignment explanation
Indices: 42867--42936 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 26
42857 GATTAAAAAT
* * * *
42867 AATAATTATAATAAAATTAATTATTAT
1 AATAA-TATATTAAAATTAATAATAAA
42894 AATAATGATATTAAAATTAATAATAAA
1 AATAAT-ATATTAAAATTAATAATAAA
*
42921 AAT-ATATATTTAAATT
1 AATAATATATTAAAATT
42937 TAAAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 10 0.27
26 3 0.08
27 24 0.65
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (26 bp):
AATAATATATTAAAATTAATAATAAA
Found at i:46245 original size:33 final size:33
Alignment explanation
Indices: 46208--46274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
46198 TTCAACGATT
46208 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
46241 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
46274 T
1 T
46275 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:46246 original size:13 final size:13
Alignment explanation
Indices: 46228--46252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46218 CATAAAATGT
46228 TGTATCGATACAA
1 TGTATCGATACAA
46241 TGTATCGATACA
1 TGTATCGATACA
46253 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46333 original size:13 final size:13
Alignment explanation
Indices: 46315--46339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46305 ATTACTCAAA
46315 TGTATCGATACAT
1 TGTATCGATACAT
46328 TGTATCGATACA
1 TGTATCGATACA
46340 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46441 original size:52 final size:52
Alignment explanation
Indices: 46348--46475 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
46338 CACTGATCTT
*
46348 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
46399 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
46451 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
46476 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:49721 original size:58 final size:57
Alignment explanation
Indices: 49634--49799 Score: 147
Period size: 58 Copynumber: 2.9 Consensus size: 57
49624 ATTTCTTAGG
* ** * * * **
49634 CATGAAAAATGACTAAAATGGCATGAAAATGCATGAATTTGCATAATAGTCCCTAAGT
1 CATGAAAAATAACTAAAATAACTTTAAAATGCAT-AAATTGCATAATAGTCCCTAAAA
* * * * *
49692 CAT-AGAAAATTATTAAAAT-TCTCTTAAAATGCATACAATTACATAATAATCCCTAAAA
1 CATGA-AAAATAACTAAAATAACT-TTAAAATGCATA-AATTGCATAATAGTCCCTAAAA
*
49750 CATGAAAAATAACTAAAGTAACTTTAAAATGCATAAAATTGCATAATAGT
1 CATGAAAAATAACTAAAATAACTTTAAAATGCAT-AAATTGCATAATAGT
49800 AACTAAGAGC
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
57 3 0.03
58 79 0.92
59 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (57 bp):
CATGAAAAATAACTAAAATAACTTTAAAATGCATAAATTGCATAATAGTCCCTAAAA
Found at i:49930 original size:58 final size:58
Alignment explanation
Indices: 49861--49973 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
49851 TAAAAATCCT
* * *
49861 TAAAATGTATGAAATGACAAAAAAG-TTTTTAAATCATAAAAAATGACTTCAATGTCTC
1 TAAAATATATGAAATGA-AAAAAAGATTTTTAAATCATAAAAAATAACTTAAATGTCTC
* * * *
49919 TAAAATATATGAAATTATATAATGATTTTTAAATCATAAAAAATAACTTAAATGT
1 TAAAATATATGAAATGAAAAAAAGATTTTTAAATCATAAAAAATAACTTAAATGT
49974 ACCTAAATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 4 0.09
58 43 0.91
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (58 bp):
TAAAATATATGAAATGAAAAAAAGATTTTTAAATCATAAAAAATAACTTAAATGTCTC
Found at i:51178 original size:20 final size:19
Alignment explanation
Indices: 51153--51223 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
51143 ACCCTGAAAA
51153 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
51173 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
51192 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
51213 GTATCGATACA
1 GTATCGATACA
51224 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:51319 original size:10 final size:10
Alignment explanation
Indices: 51300--51330 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
51290 AATCTCATTT
51300 TCACTGTTCA
1 TCACTGTTCA
*
51310 TCACTATTCA
1 TCACTGTTCA
51320 TCACTGTTCA
1 TCACTGTTCA
51330 T
1 T
51331 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:51460 original size:13 final size:13
Alignment explanation
Indices: 51442--51467 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51432 ACATATTTGT
51442 GTGTATCGATACA
1 GTGTATCGATACA
51455 GTGTATCGATACA
1 GTGTATCGATACA
51468 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:51998 original size:34 final size:35
Alignment explanation
Indices: 51935--52001 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
51925 CTAAGTGATT
51935 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
51971 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
52002 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:53141 original size:2 final size:2
Alignment explanation
Indices: 53136--53171 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
53126 GTGTGTATTT
53136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53172 ATCCTAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53724 original size:20 final size:20
Alignment explanation
Indices: 53685--53737 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
53675 TTATAATTTT
* *
53685 TATCGATATAATAAGCGAATG
1 TATCGATA-CATAAGCGAATA
*
53706 TATCGATACATAAGTGAATA
1 TATCGATACATAAGCGAATA
*
53726 TGTCGATACATA
1 TATCGATACATA
53738 TCTAAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (20 bp):
TATCGATACATAAGCGAATA
Found at i:53875 original size:20 final size:20
Alignment explanation
Indices: 53846--53900 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
53836 TTTTAACCTA
*
53846 AATATATCAATACATTTTTC
1 AATATATCAATACATTCTTC
* *
53866 ATTGTATCAATACATTCTTC
1 AATATATCAATACATTCTTC
*
53886 AATATATCGATACAT
1 AATATATCAATACAT
53901 GCAAGTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (20 bp):
AATATATCAATACATTCTTC
Found at i:64803 original size:19 final size:20
Alignment explanation
Indices: 64775--64826 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
64765 ACACCCGGAA
**
64775 GTATCGATACATGTTC-ATT
1 GTATCGATACATGGACAATT
*
64794 GTATCAATACATGGACAATT
1 GTATCGATACATGGACAATT
64814 GTATCGATACATG
1 GTATCGATACATG
64827 AAATTGACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGGACAATT
Found at i:65741 original size:27 final size:27
Alignment explanation
Indices: 65711--65812 Score: 84
Period size: 28 Copynumber: 3.7 Consensus size: 27
65701 AATTTGAATA
*
65711 AAATATTTTTAATATATTTATATTCAT
1 AAATATTTTTAATATATTTATATTAAT
*
65738 AAATGATTTTTTA-ATATTTAT-TTAAT
1 AAAT-ATTTTTAATATATTTATATTAAT
** *
65764 AAATTATTTAAAATTTATTTATTATTTAAT
1 AAA-TATTTTTAATATATTTA-TA-TTAAT
* *
65794 -AATATTATTAATATTTTTA
1 AAATATTTTTAATATATTTA
65813 CTTTATGTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
26 12 0.21
27 19 0.33
28 20 0.34
29 2 0.03
30 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
AAATATTTTTAATATATTTATATTAAT
Found at i:65763 original size:11 final size:11
Alignment explanation
Indices: 65743--65809 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
65733 TTCATAAATG
65743 ATTT-TTTAAT
1 ATTTATTTAAT
65753 ATTTATTTAAT
1 ATTTATTTAAT
* *
65764 AAATTATTTAAA
1 -ATTTATTTAAT
*
65776 ATTTATTTATT
1 ATTTATTTAAT
*
65787 ATTTA-ATAAT
1 ATTTATTTAAT
65797 A-TTA-TTAAT
1 ATTTATTTAAT
65806 ATTT
1 ATTT
65810 TTACTTTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 8 0.17
10 10 0.22
11 19 0.41
12 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTTAAT
Found at i:67234 original size:23 final size:23
Alignment explanation
Indices: 67206--67251 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
67196 TTTTTGATAA
67206 TAAAAAT-TATTTATAATAGTAATT
1 TAAAAATATA-TTA-AATAGTAATT
*
67230 TAAAAATATATTAAATATTAAT
1 TAAAAATATATTAAATAGTAAT
67252 ATTTATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 10 0.50
25 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAAAATATATTAAATAGTAATT
Found at i:68288 original size:24 final size:24
Alignment explanation
Indices: 68256--68301 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
68246 GAAATTAAAA
*
68256 TTTTAATATTTTTTATATAAAATT
1 TTTTAATATATTTTATATAAAATT
* *
68280 TTTTTATATATTTTATGTAAAA
1 TTTTAATATATTTTATATAAAA
68302 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTAATATATTTTATATAAAATT
Found at i:71681 original size:4 final size:4
Alignment explanation
Indices: 71667--71701 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
71657 GTTTCTAGCA
*
71667 AAAT TAAT AAAT AAAT AAAT AAAT AAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
71702 GGTATCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:72968 original size:19 final size:20
Alignment explanation
Indices: 72947--72984 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72937 AAGCATGTTA
72947 TTTATATTATT-TTGTTTTAT
1 TTTAT-TTATTATTGTTTTAT
72967 TTTATTTATTATTGTTTT
1 TTTATTTATTATTGTTTT
72985 TAACTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTATTTATTATTGTTTTAT
Found at i:76463 original size:16 final size:18
Alignment explanation
Indices: 76442--76477 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
76432 TATTAATATT
76442 ATTATTTAA-AAAA-TAA
1 ATTATTTAATAAAATTAA
76458 ATTATTTAATAAAATTAA
1 ATTATTTAATAAAATTAA
76476 AT
1 AT
76478 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 4 0.22
18 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTATTTAATAAAATTAA
Found at i:77463 original size:2 final size:2
Alignment explanation
Indices: 77451--77498 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
77441 CCTATATGTG
* * * *
77451 TA TA TA CA TA TA TA TA TA TA TA TA TA TC T- TT TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77492 TA TA TA T
1 TA TA TA T
77499 TTTTCATGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77487 original size:19 final size:19
Alignment explanation
Indices: 77463--77501 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
77453 TATACATATA
* *
77463 TATATATATATATATCTTT
1 TATATATAAATATATATTT
77482 TATATATAAATATATATTT
1 TATATATAAATATATATTT
77501 T
1 T
77502 TCATGCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATAAATATATATTT
Found at i:77487 original size:21 final size:20
Alignment explanation
Indices: 77461--77502 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
77451 TATATACATA
*
77461 TATATATATATATATATCTTT
1 TATATATAAATATATAT-TTT
77482 TATATATAAATATATATTTT
1 TATATATAAATATATATTTT
77502 T
1 T
77503 CATGCTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATATAAATATATATTTT
Found at i:77552 original size:15 final size:16
Alignment explanation
Indices: 77521--77554 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
77511 AAATTTAAAA
77521 TTATATTTAAAATATT
1 TTATATTTAAAATATT
*
77537 TTATATTT-ATATATT
1 TTATATTTAAAATATT
77552 TTA
1 TTA
77555 ATATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATTTAAAATATT
Found at i:77560 original size:25 final size:24
Alignment explanation
Indices: 77522--77571 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
77512 AATTTAAAAT
77522 TATATTTAAAATATTT-TATATTTA
1 TATATTTAAAATATTTATA-ATTTA
*
77546 TATATTTTAATATATTTATAATTTA
1 TATA-TTTAAAATATTTATAATTTA
77571 T
1 T
77572 GTAATATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTAAAATATTTATAATTTA
Found at i:77563 original size:24 final size:25
Alignment explanation
Indices: 77522--77571 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
77512 AATTTAAAAT
77522 TATATTTAAAATATTTTAT-ATTTA
1 TATATTTAAAATATTTTATAATTTA
*
77546 TATATTT-TAATATATTTATAATTTA
1 TATATTTAAAATAT-TTTATAATTTA
77571 T
1 T
77572 GTAATATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATTTAAAATATTTTATAATTTA
Found at i:78076 original size:15 final size:15
Alignment explanation
Indices: 78034--78077 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
78024 TAAAAATTAA
78034 TAAAAAATATTAAAT
1 TAAAAAATATTAAAT
** *
78049 TACTAAAGATTAAAT
1 TAAAAAATATTAAAT
*
78064 TAAAAAATTTTAAA
1 TAAAAAATATTAAA
78078 AAATAAATTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
TAAAAAATATTAAAT
Found at i:78431 original size:50 final size:50
Alignment explanation
Indices: 78367--78474 Score: 189
Period size: 50 Copynumber: 2.2 Consensus size: 50
78357 TGATTAATAA
* *
78367 GAAATGATTAGAAACTTATATGTCTCTCTTTATACATACACCAAAAAAAT
1 GAAAAGATTAGAAACCTATATGTCTCTCTTTATACATACACCAAAAAAAT
*
78417 GAAAAGATTAGAAACCTATATGTCTCTCTTTATACGTACACCAAAAAAAT
1 GAAAAGATTAGAAACCTATATGTCTCTCTTTATACATACACCAAAAAAAT
78467 GAAAAGAT
1 GAAAAGAT
78475 GATTGTCTGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (50 bp):
GAAAAGATTAGAAACCTATATGTCTCTCTTTATACATACACCAAAAAAAT
Found at i:82021 original size:20 final size:20
Alignment explanation
Indices: 81996--82049 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
81986 TTTTACCTAG
* * *
81996 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATGTATGA
82016 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
82036 ATGTATCGATACAT
1 ATGTATCGATACAT
82050 AGAAGAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:82057 original size:20 final size:20
Alignment explanation
Indices: 81996--82059 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
81986 TTTTACCTAG
* ***
81996 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATGTAAGA
*
82016 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTAAGA
82036 ATGTATCGATACATAG-AAGA
1 ATGTATCGATACAT-GTAAGA
82056 ATGT
1 ATGT
82060 TCTATGTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 38 0.97
21 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATGTAAGA
Found at i:89255 original size:115 final size:117
Alignment explanation
Indices: 89069--89296 Score: 300
Period size: 115 Copynumber: 2.0 Consensus size: 117
89059 TATTCAGACA
* * *
89069 TATTTTATTTAATTATATTGAAGCATAAATTATTTAATTTAAAGTTAAATTTTATAAAAAAAATA
1 TATTTTATTTAATTATATTAAAGCATAAATTATTTAATTTAAAGTCAAATCTTATAAAAAAAATA
*
89134 TATTAGATAAAATAAGTTTCATGTACTTATTTA-AT-TAATTTATTTAGGTT
66 TATTAGATAAAATAAGTCTCATGTACTTATTTAGATCTAATTTATTTAGGTT
* ** * * *
89184 TATTTTGTTTAATTATATTTAAATTATAAATTATTTAATTTAAGGTCAAGTCTTAT-AAAAATAT
1 TATTTTATTTAATTATA-TTAAAGCATAAATTATTTAATTTAAAGTCAAATCTTATAAAAAAAAT
* * * *
89248 ATGTTAGATAAAATAGGTCTCATGTATTTATTTAGATCTATTTTATTTA
65 ATATTAGATAAAATAAGTCTCATGTACTTATTTAGATCTAATTTATTTA
89297 ATTGTATTGG
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 53 0.55
116 33 0.34
117 10 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (117 bp):
TATTTTATTTAATTATATTAAAGCATAAATTATTTAATTTAAAGTCAAATCTTATAAAAAAAATA
TATTAGATAAAATAAGTCTCATGTACTTATTTAGATCTAATTTATTTAGGTT
Found at i:89333 original size:101 final size:102
Alignment explanation
Indices: 89171--89363 Score: 280
Period size: 101 Copynumber: 1.9 Consensus size: 102
89161 TATTTAATTA
* * * * * *
89171 ATTTATTTAGGTTTATTTTGTTTAATTATATTTAAATTATAAATTATTTAATTTAAGGTCAAGTC
1 ATTTATTTAGATCTATTTTATTTAATTATATTTAAATCATAAATTATTGAATTTAAGGTCAAATC
**
89236 TTATAAAAATATATGTTAGATAAAATAGGTCTCATGT
66 TTATAAAAATATAAATTAGATAAAATAGGTCTCATGT
* **
89273 ATTTATTTAGATCTATTTTATTTAATTGTA-TTGGATCATAAATTATTGAATTTAAGGTCAAATC
1 ATTTATTTAGATCTATTTTATTTAATTATATTTAAATCATAAATTATTGAATTTAAGGTCAAATC
89337 TTATAAAAATATAAATTAGATAAAATA
66 TTATAAAAATATAAATTAGATAAAATA
89364 AGGGCCATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 54 0.68
102 26 0.32
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (102 bp):
ATTTATTTAGATCTATTTTATTTAATTATATTTAAATCATAAATTATTGAATTTAAGGTCAAATC
TTATAAAAATATAAATTAGATAAAATAGGTCTCATGT
Found at i:89381 original size:101 final size:99
Alignment explanation
Indices: 89209--89394 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 99
89199 TATTTAAATT
* * ** *
89209 ATAAATTATTTAATTTAAGGTCAAGTCTTATAAAAATATATGTTAGATAAAATAGGTCTCATGTA
1 ATAAATTATTGAATTTAAGGTCAAATCTTATAAAAATATAAATTAGATAAAATAGGGCTCATGTA
** *
89274 TTTATTTAGATCTATTTTATTTAATTGTATTGGATC
66 CATATTTA-AT-TAATTTATTTAATTGTATTGGATC
*
89310 ATAAATTATTGAATTTAAGGTCAAATCTTATAAAAATATAAATTAGATAAAATAAGGGC-CATTT
1 ATAAATTATTGAATTTAAGGTCAAATCTTATAAAAATATAAATTAGATAAAAT-AGGGCTCATGT
89374 ACATATTTAATTAATTTATTT
65 ACATATTTAATTAATTTATTT
89395 GAGACCTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 9 0.12
100 2 0.03
101 60 0.80
102 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (99 bp):
ATAAATTATTGAATTTAAGGTCAAATCTTATAAAAATATAAATTAGATAAAATAGGGCTCATGTA
CATATTTAATTAATTTATTTAATTGTATTGGATC
Found at i:89429 original size:24 final size:25
Alignment explanation
Indices: 89379--89429 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
89369 CATTTACATA
*
89379 TTTAATTAATTTATTTGAGACCTAT
1 TTTAATTAATTTATTTGAGACCAAT
*
89404 TTTATTTAA-TTATGTTGAG-CCAAT
1 TTTAATTAATTTAT-TTGAGACCAAT
89428 TT
1 TT
89430 GTAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (25 bp):
TTTAATTAATTTATTTGAGACCAAT
Found at i:97591 original size:107 final size:107
Alignment explanation
Indices: 97435--97640 Score: 259
Period size: 107 Copynumber: 1.9 Consensus size: 107
97425 ATTGCTGTCG
* * * ** * * *
97435 TGGAAGCTGTTGCTTGTTGGAGCTGCTGGTTTCAAGTGTTTTGTGGAGCTATTGTTCATGCTTGT
1 TGGAAGCTGCTGCTTGTTCGAGCTACAAGTTTCAAGTGCTTTATGGAGCTACTGTTCATGCTTGT
* * *
97500 TGTGGAAGCCGCTGCTTGTTGGAACTGCTATCGTTGCTACTT
66 TGCGGAAGCCGCGGCTTGTTGGAACTACTATCGTTGCTACTT
** * *
97542 TGGAAGCTGCTGCTTGTTCGAGCTACAAGTTTCGGGTGCTTTATGGAGCTGCTGTTCGTGCTTGT
1 TGGAAGCTGCTGCTTGTTCGAGCTACAAGTTTCAAGTGCTTTATGGAGCTACTGTTCATGCTTGT
* *
97607 TGCGGAAGCTGCGGCTTGTTGGAGCTACTATCGT
66 TGCGGAAGCCGCGGCTTGTTGGAACTACTATCGT
97641 CCTGCCGTGG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
107 82 1.00
ACGTcount: A:0.13, C:0.17, G:0.32, T:0.37
Consensus pattern (107 bp):
TGGAAGCTGCTGCTTGTTCGAGCTACAAGTTTCAAGTGCTTTATGGAGCTACTGTTCATGCTTGT
TGCGGAAGCCGCGGCTTGTTGGAACTACTATCGTTGCTACTT
Found at i:97705 original size:106 final size:107
Alignment explanation
Indices: 97478--97714 Score: 269
Period size: 106 Copynumber: 2.2 Consensus size: 107
97468 AAGTGTTTTG
** * * * * * **
97478 TGGAGCTATTGTTCATGCTTGTTGTGGAAGCCGCTGCTTGTTGGAACTGCTATCGTTGCTACTTT
1 TGGAGCTGCTGTTCGTGCTTGTTGCGGAAGCCGCGGCTTGTTGGAACTACTATCGTTCCTACCGT
* *
97543 GGAAGCTGCTGCTTGTTCGAGCTACAAGTTTCGGGTGCTTTA
66 GGAAGCTACTGCTTGTTCGAGCTACAAGTTTCGGGTACTTTA
* * *
97585 TGGAGCTGCTGTTCGTGCTTGTTGCGGAAGCTGCGGCTTGTTGGAGCTACTATCG-TCCTGCCGT
1 TGGAGCTGCTGTTCGTGCTTGTTGCGGAAGCCGCGGCTTGTTGGAACTACTATCGTTCCTACCGT
* * *** * *
97649 GGAAGTTACTGCTTGTTGGAGCTATTGGTTTTGGGTACTTTC
66 GGAAGCTACTGCTTGTTCGAGCTACAAGTTTCGGGTACTTTA
*
97691 TGGAGCTGCTGTTCGTACTTGTTG
1 TGGAGCTGCTGTTCGTGCTTGTTG
97715 GAGCTTTTGA
Statistics
Matches: 108, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
106 61 0.56
107 47 0.44
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.38
Consensus pattern (107 bp):
TGGAGCTGCTGTTCGTGCTTGTTGCGGAAGCCGCGGCTTGTTGGAACTACTATCGTTCCTACCGT
GGAAGCTACTGCTTGTTCGAGCTACAAGTTTCGGGTACTTTA
Found at i:98969 original size:43 final size:43
Alignment explanation
Indices: 98913--99548 Score: 659
Period size: 43 Copynumber: 15.0 Consensus size: 43
98903 AGGCAGTATT
* * **
98913 CAGGGTCAAAGCCGATAGGCAGACTGAGGGATAAAAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* *
98956 CAGGGTCAAAGCCGACAAGCAGACTAAGGCATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
*
98999 TAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * *
99042 CAAGGTCAAAACCGATAGGCAGACTAAGGGA-AGAAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * * * *
99084 CAAGGTCAAAACTGACAGGCAGACTGAGGGAAAGGAAAGCCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * ** * * *
99127 CAGGATCAAAACTAAC-GGCAAATTGAGGGA-AGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * * *
99168 TAAGGTC--A----ACAGGCAGATTAAGGGA-A-AAAATGTTTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAA-GTCTC
* * *
99204 CAGGGTTAAAGCCGACTGGCAGACTGAGGGATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * *
99247 TAGGGTCAAAGCCGATAGGCAGACTGAGGGATAAGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * * * *
99290 CAAGGTCAAAGTCGACAAGCAGACTGAGGGATAAGAAAGTTTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* *
99333 CAAGGTCAAAGCCGACAGGCAGAATGAA-GGATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAAAGTCTC
* * * *
99376 CAGGGTCAAAGCTGATAGGCAAACTAAAGGATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
*
99419 CAGGGTCAAAGCCGACAGGTAGACTAAGGGATAGGAAAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * * *
99462 TAGGGTCAAAGCCGATAGGCAGACTAAGGGATAGAAAAGTCTT
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
* * *
99505 CAGGGTCAAAGTCGACAGGCATACTAAGGGATAGG-GAGTCTC
1 CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
99547 CA
1 CA
99549 AAAGTTTAAT
Statistics
Matches: 501, Mismatches: 79, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
35 5 0.01
36 21 0.04
38 1 0.00
39 1 0.00
41 14 0.03
42 73 0.15
43 382 0.76
44 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (43 bp):
CAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTC
Found at i:108857 original size:31 final size:30
Alignment explanation
Indices: 108812--109153 Score: 353
Period size: 31 Copynumber: 11.0 Consensus size: 30
108802 TCTTCAAATC
*
108812 TCTTTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
*
108842 TCTTTTCTTCAAAGTCCACGACTCTGTGGCAA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGC-A
*
108874 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
*
108904 TCTTTTCTTCAAAGTCCATGACTCAGTGGCAA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGC-A
** *
108936 TCCCTTCTCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
*
108966 TCTATTT-TCCTAAAGTCCACGACTCAATGGCA
1 TCT-TTTCT-C-AAAGTCCACGACTCAGTGGCA
*
108998 TCTTTTCTTCAAAGTCCACGACTTAGTGGCAA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGC-A
** * *
109030 TCCCTTCTTCAAAGTCCATGACTCAATGGCA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
109061 TCTCTTCTCAAAGTCCACAACTTAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
* *
109091 TTTCTTTTCTCAAAGTCCACAACTTAGTGGCAA
1 --TCTTTTCTCAAAGTCCACGACTCAGTGGC-A
* * * * *
109124 TCTATTCACAAAGCCCACAACTCCGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
109154 CCCTTTTAAG
Statistics
Matches: 267, Mismatches: 32, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
30 38 0.14
31 137 0.51
32 90 0.34
33 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (30 bp):
TCTTTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:108907 original size:62 final size:62
Alignment explanation
Indices: 108820--109153 Score: 397
Period size: 62 Copynumber: 5.4 Consensus size: 62
108810 TCTCTTTTCC
* *
108820 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCAATCTCTTCT
1 CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
* * *
108882 CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCCCTTCT
1 CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
* * *
108944 CAAAGTCCACAACTCAGTGGCATCTATTT-TCCTAAAGTCCACGACTCAATGGC-ATCTTTTCTT
1 CAAAGTCCACAACTCAGTGGCATCT-TTTCTTC-AAAGTCCACGACTCAGTGGCAATCTCTTC-T
* * ** * *
109007 CAAAGTCCACGACTTAGTGGCAATCCCTTCTTCAAAGTCCATGACTCAATGGC-ATCTCTTCT
1 CAAAGTCCACAACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
* * * * *
109069 CAAAGTCCACAACTTAGTGGCATTTCTTTTC-TCAAAGTCCACAACTTAGTGGCAATCTATTCA
1 CAAAGTCCACAACTCAGTGGCA--TCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
* *
109132 CAAAGCCCACAACTCCGTGGCA
1 CAAAGTCCACAACTCAGTGGCA
109154 CCCTTTTAAG
Statistics
Matches: 236, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
61 1 0.00
62 130 0.55
63 100 0.42
64 5 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (62 bp):
CAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
Found at i:109068 original size:125 final size:125
Alignment explanation
Indices: 108820--109158 Score: 420
Period size: 125 Copynumber: 2.7 Consensus size: 125
108810 TCTCTTTTCC
* * **
108820 CAAAGTCCACGACTCAGTGGCATC-TTTTCTTCAAAGTCCACGACTCTGTGGCAATCTCTTCTCA
1 CAAAGTCCACAACTCAGTGGCATCTTTTTCCTCAAAGTCCACGACTCAATGGCAATCTCTTCTCA
** *
108884 AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCCCTTCT
66 AAGTCCACGACTCAGTGGCATCCCTTCTTCAAAGTCCATGACTCAATGGCAATCCCTTCT
*
108944 CAAAGTCCACAACTCAGTGGCATCTATTTTCCT-AAAGTCCACGACTCAATGGC-ATCTTTTCTT
1 CAAAGTCCACAACTCAGTGGCATCT-TTTTCCTCAAAGTCCACGACTCAATGGCAATCTCTTC-T
* *
109007 CAAAGTCCACGACTTAGTGGCAATCCCTTCTTCAAAGTCCATGACTCAATGGC-ATCTCTTCT
64 CAAAGTCCACGACTCAGTGGC-ATCCCTTCTTCAAAGTCCATGACTCAATGGCAATCCCTTCT
* * * * * * *
109069 CAAAGTCCACAACTTAGTGGCAT-TTCTTTTCTCAAAGTCCACAACTTAGTGGCAATCTATTCAC
1 CAAAGTCCACAACTCAGTGGCATCTT-TTTCCTCAAAGTCCACGACTCAATGGCAATCTCTTCTC
* * *
109133 AAAGCCCACAACTCCGTGGCA-CCCTT
65 AAAGTCCACGACTCAGTGGCATCCCTT
109159 TTAAGTCTAC
Statistics
Matches: 187, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
123 6 0.03
124 37 0.20
125 103 0.55
126 41 0.22
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.29
Consensus pattern (125 bp):
CAAAGTCCACAACTCAGTGGCATCTTTTTCCTCAAAGTCCACGACTCAATGGCAATCTCTTCTCA
AAGTCCACGACTCAGTGGCATCCCTTCTTCAAAGTCCATGACTCAATGGCAATCCCTTCT
Found at i:109189 original size:94 final size:93
Alignment explanation
Indices: 109091--109308 Score: 217
Period size: 94 Copynumber: 2.3 Consensus size: 93
109081 CTTAGTGGCA
*
109091 TTTCTTTTCTCAAAGTCCACAACTT-AGTGGCAATC-TATTCACAAAGCCCACAACTCCGTGGCA
1 TTTCTTTT-T-AAAGCCCACAACTTCA-TGGCAATCTTATTCACAAAGCCCACAACTCCGTGGCA
* * *
109154 CCCTTTTAAGTCTACAACTTCGTGGCACCTT
63 CCCTTTTAAGTCCACAACTCCGTGGCACCCT
* * * **** * *
109185 TTTCTTTTTAAGGCCCACAACTTCATGGCACTCTTTTTTTTTTAAGTCCACAACTCCGTGGTACC
1 TTTCTTTTTAAAGCCCACAACTTCATGGCAATC-TTATTCACAAAGCCCACAACTCCGTGGCACC
109250 CTTTTAAGTCCACAACTCCGTGGCACCCT
65 CTTTTAAGTCCACAACTCCGTGGCACCCT
* * * *
109279 TTTCCCTTTT-AAGCCGACACCTCCATGGCA
1 TTT-CTTTTTAAAGCCCACAACTTCATGGCA
109309 TCCCTTTTTC
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
92 19 0.19
93 2 0.02
94 76 0.75
95 5 0.05
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (93 bp):
TTTCTTTTTAAAGCCCACAACTTCATGGCAATCTTATTCACAAAGCCCACAACTCCGTGGCACCC
TTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:109207 original size:34 final size:33
Alignment explanation
Indices: 109155--109802 Score: 547
Period size: 34 Copynumber: 19.9 Consensus size: 33
109145 TCCGTGGCAC
* *
109155 CCTTTTAAGTCTACAACTTCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
109188 CTTTTTAAGGCCCACAACTTCATGGCACTCTTTTT
1 CCTTTTAA-GTCCACAACTCCGTGGCAC-CTTTTT
* *
109223 -TTTTTAAGTCCACAACTCCGTGGTA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
109249 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* *
109283 CCTTTTAAG-CCGACACCTCCATGGCATCCCTTTTT
1 CCTTTTAAGTCC-ACAACTCCGTGGCA--CCTTTTT
** * *
109318 -CTTGAAAGTCCACAACT-TGTGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
109349 CCCTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 -CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* *
109384 CCTTTTAAGTCCTCGACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* * * *
109418 CCTTTTAAATCCATAACTCTGTGGTA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
109445 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
109478 CCTTTTAAGTCCACAACTTCGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
109511 CCTTTTAAGTCCACAACTCCGTGGCACC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * ** *
109543 CTTTTTAAGTCCACGACTCTATGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
109576 CCTTTTTAAG-CCGACACCTCCGTGGCATCCCTTTTT
1 CC-TTTTAAGTCC-ACAACTCCGTGGCA--CCTTTTT
*
109612 CCTTTTAAGTCTACAACTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
109639 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
109672 CCTTTTAAGTCCACGACTCTGTGGTACC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
109704 CTTTTTAAGTCCACGACTCCGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* *
109738 CCTTTTAAGCCCACACCTCCGTGGCATCCCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTT
* * *
109773 CC-TATAAGTTCACAACTCTGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT
109803 AAGTCCAATA
Statistics
Matches: 504, Mismatches: 73, Indels: 77
0.77 0.11 0.12
Matches are distributed among these distances:
27 69 0.14
28 2 0.00
29 1 0.00
31 8 0.02
32 61 0.12
33 133 0.26
34 171 0.34
35 50 0.10
36 9 0.02
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:109262 original size:27 final size:27
Alignment explanation
Indices: 109224--109281 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
109214 ACTCTTTTTT
*
109224 TTTTAAGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
109251 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
109278 TTTT
1 TTTT
109282 CCCTTTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.33
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:109477 original size:27 final size:27
Alignment explanation
Indices: 109418--109542 Score: 72
Period size: 33 Copynumber: 4.2 Consensus size: 27
109408 CACTCTTTTT
* * *
109418 CCTTTTAAATCCATAACTCTGTGGTAC
1 CCTTTTAAATCCACAACTCCGTGGCAC
*
109445 CCTTTTAAGTCCACAACTCCGTGGCATC
1 CCTTTTAAATCCACAACTCCGTGGCA-C
* *
109473 TTTTTCCTTTTAAGTCCACAACTTCGTGGCACC
1 -----CCTTTTAAATCCACAACTCCGTGGCA-C
*
109506 TTGTTCCTTTTAAGTCCACAACTCCGTGGCA-
1 -----CCTTTTAAATCCACAACTCCGTGGCAC
109537 CCTTTT
1 CCTTTT
109543 CTTTTTAAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.07
27 22 0.26
28 1 0.01
33 55 0.65
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (27 bp):
CCTTTTAAATCCACAACTCCGTGGCAC
Found at i:109762 original size:161 final size:162
Alignment explanation
Indices: 109140--109809 Score: 643
Period size: 161 Copynumber: 4.2 Consensus size: 162
109130 CACAAAGCCC
* *
109140 ACAACTCCGTGGCACCCTTTTAAGTCTACAACTTCGTGGCACCTTTTTCTTTTTAAGGCCCACAA
1 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAA-GCCCACAA
* * * * *
109205 CT-TCATGGCACTCTTTTTTTTTTAAGTCCACAACTCCGTGG-------TACCCTTTTAAGTCCA
65 CTCT-GTGGCACTCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAGCCCA
* * *
109262 CAACTCCGTGGCA-CCCTTTTCCCTTTTAAGCCG
129 CAACTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
* * * *
109295 ACACCTCCATGGCATCCCTTTTTCTTGAAAGTCCACAACTT-GTGGTACCTTTTTCCCTTTAAAG
1 ACAACTCCGTGGCA-CCC---TT-TT--AAGTCCACAACTTCGTGGCACCTTTTT-CCTTTTAAG
* * * *
109359 CCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCTCGACTCCGTGGCACTCTTTTTCCTTTT
58 CCCACAACTCTGTGGCACTC-TTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTT
** * * * *
109424 AAATCCATAACTCTGTGG--T-AC-----CCTTTTAAGTCC
122 AAGCCCACAACTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
* *
109457 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTC
1 ACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGCC
* ** *
109522 CACAACTCCGTGGCAC-CTTTTCTTTTTAAGTCCACGACTCTATGGCACCCTTTTCCTTTTTAAG
60 CACAACTCTGTGGCACTCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAG
* *
109586 CCGACACCTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
125 CCCACAACTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
* * *
109624 ACAACTCCGTGGCACCCTTTTAAGTCCACAAC-TCTGTGGCATCTTTTTCCTTTTAAGTCCACGA
1 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTTC-GTGGCACCTTTTTCCTTTTAAGCCCACAA
*
109688 CTCTGTGGTAC-CTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAGCCCAC
65 CTCTGTGGCACTCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAGCCCAC
* *
109752 ACCTCCGTGGCATCCCTTTTTCC-TATAAGT-T
130 AACTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
*
109783 CACAACTCTGTGGCA-CC-TTTAAGTCCA
1 -ACAACTCCGTGGCACCCTTTTAAGTCCA
109810 ATATCGCTGG
Statistics
Matches: 429, Mismatches: 52, Indels: 65
0.79 0.10 0.12
Matches are distributed among these distances:
155 12 0.03
156 3 0.01
158 10 0.02
159 54 0.13
160 24 0.06
161 192 0.45
162 79 0.18
163 2 0.00
164 2 0.00
166 1 0.00
167 28 0.07
169 22 0.05
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (162 bp):
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCCTTTTAAGCCCACAAC
TCTGTGGCACTCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCCTTTTCCCTTTTAAGCCCACA
ACTCCGTGGCATCCCTTTTTCCTTTTAAGTCT
Found at i:109962 original size:39 final size:39
Alignment explanation
Indices: 109914--110150 Score: 108
Period size: 39 Copynumber: 5.6 Consensus size: 39
109904 GACCAATGTT
*
109914 GCTGTCCTTGAATCAGCACATTGGTGCAAACCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGTGCAAACCCAATATC
* *
109953 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA-CCAATGTC
1 GCTGGCCTTGAATCAGCACATTGG-----TG---C-AA-ACCCAATATC
* * *
110001 GCTGACCTTAAATCAACACATT-G-GCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGTGCA-AA-CCCAATATC
* * * *
110040 GCTGGCCTTAAATCAGCATATTAGCACCTTGTTTCTAAGA-CCAATGTC
1 GCTGGCCTTGAATCAGC-----A-CA--TTGGTGC-AA-ACCCAATATC
110088 GCTGGCCTTGAATCAGCACATT-G-GCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGTGCA-AA-CCCAATATC
* *
110127 ACTGGCCTTGAATCAGCATATTGG
1 GCTGGCCTTGAATCAGCACATTGG
110151 CACCTTACCT
Statistics
Matches: 150, Mismatches: 19, Indels: 57
0.66 0.08 0.25
Matches are distributed among these distances:
37 4 0.03
38 4 0.03
39 71 0.47
40 3 0.02
41 1 0.01
42 2 0.01
43 1 0.01
44 3 0.02
45 2 0.01
47 4 0.03
48 50 0.33
49 3 0.02
50 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATTGGTGCAAACCCAATATC
Found at i:110015 original size:87 final size:88
Alignment explanation
Indices: 109858--110286 Score: 618
Period size: 87 Copynumber: 4.9 Consensus size: 88
109848 CATCTTGAGT
* *
109858 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCTGTCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
109923 GAATCAGCACATTGGTGCA-AA-C
66 GAATCAGCACATTGG-GCATAAGC
* *
109945 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGACCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
110010 AAATCAACACATT-GGCATAAGC
66 GAATCAGCACATTGGGCATAAGC
* *
110032 CCAATATCGCTGGCCTTAAATCAGCATATTAGCACCTTGT-TTCTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-TAAGACCAATGTCGCTGGCCT
110096 TGAATCAGCACATT-GGCATAAGC
65 TGAATCAGCACATTGGGCATAAGC
* **
110119 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTACCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * * *
110184 GGATCAACATATT-GGCACAAGC
66 GAATCAGCACATTGGGCATAAGC
** * *
110206 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TGTCTTTAAGACCAATGTCGCTGGCCT
110271 TGAATCAGCACATTGG
65 TGAATCAGCACATTGG
110287 CACCGTAACC
Statistics
Matches: 308, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
85 3 0.01
86 4 0.01
87 264 0.86
88 36 0.12
89 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGGCATAAGC
Found at i:110151 original size:39 final size:39
Alignment explanation
Indices: 110075--110239 Score: 168
Period size: 39 Copynumber: 4.0 Consensus size: 39
110065 ACCTTGTTTC
* *
110075 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
110114 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG---C--A
* * *
110158 CCTTTAAGACCAATGTCGCTGGCCTTGGATCAACATATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
* *
110201 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
110240 CCTCCATCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
39 67 0.65
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
48 32 0.31
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
Found at i:110324 original size:52 final size:49
Alignment explanation
Indices: 110219--110330 Score: 127
Period size: 52 Copynumber: 2.2 Consensus size: 49
110209 ATATCGCTGG
* * ** *
110219 CCTTGAATCAGCATATTGGCACCTCCATCTTTAAGACCGATGTCGTTGG
1 CCTTGAATCAGCACATTGGCACCTCCATCTTTAAGACCAATGTCGCCGA
*
110268 CCTTGAATCAGCACATTGGCACCGTAACCATCTTTAAGTCCAATGAT-GCCGA
1 CCTTGAATCAGCACATTGGCACC-T--CCATCTTTAAGACCAATG-TCGCCGA
110320 CCTTGAATCAG
1 CCTTGAATCAG
110331 TTGGCATCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 22 0.42
50 1 0.02
52 29 0.55
53 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
CCTTGAATCAGCACATTGGCACCTCCATCTTTAAGACCAATGTCGCCGA
Found at i:117745 original size:20 final size:20
Alignment explanation
Indices: 117707--117784 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
117697 TCTGGGTAAA
*
117707 AAAAATGTATCGATGCATT-
1 AAAAATGTATCGATACATTC
*
117726 AAAGAATGTATCAATACATTC
1 AAA-AATGTATCGATACATTC
* * *
117747 ATACATGTATCGATACATTG
1 AAAAATGTATCGATACATTC
*
117767 AAAAATATATCGATACAT
1 AAAAATGTATCGATACAT
117785 CTGGGTACTT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.06
20 43 0.90
21 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAAATGTATCGATACATTC
Found at i:120220 original size:21 final size:20
Alignment explanation
Indices: 120180--120221 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
120170 AATATTTGAA
*
120180 TTAAAATTTACTTAATTTAT
1 TTAAAATTTAATTAATTTAT
*
120200 TTAAAATTTAAATTTATTTAT
1 TTAAAATTT-AATTAATTTAT
120221 T
1 T
120222 ATCCACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAAATTTAATTAATTTAT
Found at i:122127 original size:6 final size:6
Alignment explanation
Indices: 122116--122153 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
122106 AGGGACCGAA
*
122116 GCAGGT GCAGGT GCAGGT GCAGGT GCAGGT GCGGGT GC
1 GCAGGT GCAGGT GCAGGT GCAGGT GCAGGT GCAGGT GC
122154 TGGGGTATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.53, T:0.16
Consensus pattern (6 bp):
GCAGGT
Found at i:126506 original size:20 final size:20
Alignment explanation
Indices: 126473--126512 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
126463 TATTTTTATT
126473 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
126493 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
126513 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:128225 original size:6 final size:6
Alignment explanation
Indices: 128181--128224 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
128171 GAAGTAAAAT
* * * *
128181 TACTAA CACTAA TATTAA TACTAA TACTAA TGCTAA TAATAA TA
1 TACTAA TACTAA TACTAA TACTAA TACTAA TACTAA TACTAA TA
128225 AAAGATGAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (6 bp):
TACTAA
Found at i:129142 original size:50 final size:50
Alignment explanation
Indices: 129066--129170 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
129056 TGGTTCCCAC
* *
129066 AAAATTCAGTGTTCTTTTATACTTTCCTTCTAGGATAATTTTAGTTTCA-T
1 AAAATTCAGTGTTCTTTAATACTTTCCTTCTA-GAAAATTTTAGTTTCATT
*
129116 AAAATTCAGTGTTCTTTAATATTTTCCTTCTAGAAAATTTTAGTTTCATT
1 AAAATTCAGTGTTCTTTAATACTTTCCTTCTAGAAAATTTTAGTTTCATT
129166 AAAAT
1 AAAAT
129171 GCAATGCTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 15 0.29
50 36 0.71
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (50 bp):
AAAATTCAGTGTTCTTTAATACTTTCCTTCTAGAAAATTTTAGTTTCATT
Found at i:129504 original size:14 final size:15
Alignment explanation
Indices: 129479--129509 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
129469 AAAAAATTAT
129479 ATTTTTACATAATAA
1 ATTTTTACATAATAA
129494 ATTTTTA-ATAATAA
1 ATTTTTACATAATAA
129508 AT
1 AT
129510 AATTACATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTTTACATAATAA
Found at i:130605 original size:15 final size:16
Alignment explanation
Indices: 130569--130608 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
130559 TTTAATATTT
*
130569 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
130586 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
130601 ATAAAATT
1 ATAAAATT
130609 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:130611 original size:16 final size:17
Alignment explanation
Indices: 130569--130611 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
130559 TTTAATATTT
*
130569 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
130586 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
130601 ATAAAATTTAT
1 ATAAAATTTAT
130612 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:130865 original size:19 final size:18
Alignment explanation
Indices: 130835--130880 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
130825 CTCAATATAA
130835 AAAATAATATGAATATAGT
1 AAAAT-ATATGAATATAGT
*
130854 ACAAATATATGAATATATT
1 A-AAATATATGAATATAGT
130873 AAAATATA
1 AAAATATA
130881 GATTAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 14 0.56
20 4 0.16
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAATATATGAATATAGT
Found at i:131013 original size:19 final size:18
Alignment explanation
Indices: 130985--131024 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
130975 CATGAAAGTG
*
130985 ATATGCACATAATACAAAT
1 ATATGCACAT-ATAAAAAT
*
131004 ATATGTACATATAAAAAT
1 ATATGCACATATAAAAAT
131022 ATA
1 ATA
131025 CATGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (18 bp):
ATATGCACATATAAAAAT
Found at i:131967 original size:19 final size:20
Alignment explanation
Indices: 131931--131981 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
131921 GAAAATAATA
*
131931 TACATATGAAATGAATATATG
1 TACATATAAAAT-AATATATG
131952 TACATATAAAAT-ATATATG
1 TACATATAAAATAATATATG
131971 -A-A-ATAAAATAA
1 TACATATAAAATAA
131982 ATTATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 1 0.04
19 7 0.25
21 11 0.39
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (20 bp):
TACATATAAAATAATATATG
Found at i:132958 original size:11 final size:11
Alignment explanation
Indices: 132942--133006 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
132932 AATATGATAT
132942 TATATATTTAA
1 TATATATTTAA
*
132953 TATATATTAAA
1 TATATATTTAA
*
132964 TTTATATTTATA
1 TATATATTTA-A
* *
132976 TTTAATATTT-T
1 TAT-ATATTTAA
*
132987 TATTTATTTAA
1 TATATATTTAA
132998 TAATATATT
1 T-ATATATT
133007 ATATTTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.12
11 21 0.50
12 10 0.24
13 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTTAA
Found at i:132964 original size:30 final size:28
Alignment explanation
Indices: 132920--132983 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
132910 TATAATGATG
132920 TTAA-ATATAATAAATATGATATTATATAT
1 TTAATATATAATAAAT-TGATATT-TATAT
* *
132949 TTAATATATATTAAATTTATATTTATAT
1 TTAATATATAATAAATTGATATTTATAT
132977 TTAATAT
1 TTAATAT
132984 TTTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 12 0.38
29 10 0.31
30 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
TTAATATATAATAAATTGATATTTATAT
Found at i:132977 original size:17 final size:18
Alignment explanation
Indices: 132938--133015 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 18
132928 AATAAATATG
*
132938 ATATTATATATTTA-ATAT
1 ATATTA-ATATTTATATTT
132956 ATATTAA-ATTTATATTT
1 ATATTAATATTTATATTT
*
132973 ATATTTAATATTTTTATTT
1 ATA-TTAATATTTATATTT
*
132992 ATTTAATAATATATTATATTT
1 A--TATTAATAT-TTATATTT
133013 ATA
1 ATA
133016 AATTAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
16 5 0.10
17 7 0.14
18 10 0.20
19 12 0.24
20 6 0.12
21 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTAATATTTATATTT
Found at i:133022 original size:21 final size:20
Alignment explanation
Indices: 132938--133023 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 20
132928 AATAAATATG
132938 ATATTATATATTTAATATATATTA
1 ATATT-TATATTT-ATA-A-ATTA
*
132962 A-ATTTATATTTAT-ATTTA
1 ATATTTATATTTATAAATTA
* *
132980 ATATTTTTATTTATTTAA-TA
1 ATATTTATATTTA-TAAATTA
133000 ATATATTATATTTATAAATTA
1 ATAT-TTATATTTATAAATTA
133021 ATA
1 ATA
133024 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.08
19 11 0.21
20 10 0.19
21 16 0.31
22 7 0.13
23 3 0.06
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTATATTTATAAATTA
Found at i:134189 original size:20 final size:21
Alignment explanation
Indices: 134137--134193 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
134127 CTTTTACAAA
* *
134137 AAATTGTTACAAAATATGTCC
1 AAATAGTTACAAAATATGCCC
*
134158 AACATGGTTACAAAATAT-CCC
1 AA-ATAGTTACAAAATATGCCC
134179 AAATAGTTACAAAAT
1 AAATAGTTACAAAAT
134194 TTGCAACCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.38
21 6 0.19
22 14 0.44
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (21 bp):
AAATAGTTACAAAATATGCCC
Found at i:136937 original size:179 final size:179
Alignment explanation
Indices: 136604--137072 Score: 726
Period size: 179 Copynumber: 2.6 Consensus size: 179
136594 TAATATTTAA
* * * ** * *
136604 ATTTTTTAATTTTTAAAAATCTCATTTTATATTTTAATGGATAACCGAAAAGATACAAAAAGTTT
1 ATTTTTT-ATTTTCAAAAATGTCATGTCGTATCTTAATGGAAAACCGAAAAGATACAAAAAGTTT
* * ** *
136669 TAAATATTTTTATACCCTTACAAACAACCATAAGAATAATAGAAATCTTGAAAAATTAGGATAAT
65 TAAATATTTCTATACCCTTACAGACAACCATAAGAATAATAGAAATCTTGAAAAATTAAAAGAAT
136734 AATTTTTATTTAGTGATAAAATAATATTTATTTATTATTTTATTTATTTT
130 AATTTTTATTTAGTGATAAAATAATATTTATTTATTATTTTATTTATTTT
* *
136784 ATTTTATT-TTTTCAAAAATTTCATGTCGTA-CATTAATGGAAAATCGAAAAGATACAAAAAGTT
1 ATTTT-TTATTTTCAAAAATGTCATGTCGTATC-TTAATGGAAAACCGAAAAGATACAAAAAGTT
*
136847 TTAAATATTTCTATATCCTTACAGACAACCATAAGAATAATAGAAATCTTGAAAAATTAAAAGAA
64 TTAAATATTTCTATACCCTTACAGACAACCATAAGAATAATAGAAATCTTGAAAAATTAAAAGAA
136912 TAATTTTTATTTAGTGATAAAATAATATTTATTTATTATTTTATTTATTTT
129 TAATTTTTATTTAGTGATAAAATAATATTTATTTATTATTTTATTTATTTT
* *
136963 ATTTTTTATTTTCAAAAATGTCATTTCGTATCTTAATGGAAAACCGAAAAGATATAAAAAGTTTT
1 ATTTTTTATTTTCAAAAATGTCATGTCGTATCTTAATGGAAAACCGAAAAGATACAAAAAGTTTT
* *
137028 AAATATTTCTATACCCTTACGGATAACCATAAGAATAATAGAAAT
66 AAATATTTCTATACCCTTACAGACAACCATAAGAATAATAGAAAT
137073 ATATAAAAAT
Statistics
Matches: 264, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
178 2 0.01
179 254 0.96
180 6 0.02
181 2 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
ATTTTTTATTTTCAAAAATGTCATGTCGTATCTTAATGGAAAACCGAAAAGATACAAAAAGTTTT
AAATATTTCTATACCCTTACAGACAACCATAAGAATAATAGAAATCTTGAAAAATTAAAAGAATA
ATTTTTATTTAGTGATAAAATAATATTTATTTATTATTTTATTTATTTT
Found at i:136958 original size:16 final size:16
Alignment explanation
Indices: 136937--136973 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
136927 GATAAAATAA
136937 TATTTA-TTTATTATTT
1 TATTTATTTTATT-TTT
136953 TATTTATTTTATTTTT
1 TATTTATTTTATTTTT
136969 TATTT
1 TATTT
136974 TCAAAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTATTTTATTTTT
Found at i:137216 original size:15 final size:15
Alignment explanation
Indices: 137198--137227 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
137188 CACCAAATTA
137198 CATGAAAAATCACAT
1 CATGAAAAATCACAT
*
137213 CATGACAAATCACAT
1 CATGAAAAATCACAT
137228 ATTTCACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (15 bp):
CATGAAAAATCACAT
Found at i:138183 original size:5 final size:5
Alignment explanation
Indices: 138168--138196 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
138158 ACTAGTTGAA
138168 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
138197 TTTCAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:140142 original size:45 final size:45
Alignment explanation
Indices: 140022--140301 Score: 210
Period size: 45 Copynumber: 6.4 Consensus size: 45
140012 AATCAAACGG
* * * * * *
140022 GAATGAGAAGATGTTTGACCAGGGTGAGAACCATCACATCAAATAG
1 GAATGAAAAGA-GTTTGACCAAGGCGAGAACCATCACGTCAAACAA
*
140068 GAATG-AAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAACAA
1 GAATGAAAAGAGTTTGACCAAGGCGAGAACCATCACGTCAAACAA
* * * *
140112 GAATGAAAAGGGTTTGACCAAGGCAAGAACCATCACATTAAACCAA
1 GAATGAAAAGAGTTTGACCAAGGCGAGAACCATCACGTCAAA-CAA
* * * **
140158 -AATGAAAAGTGTTTGACTATA---TAG-A--AT----T-AAACCG
1 GAATGAAAAGAGTTTGACCA-AGGCGAGAACCATCACGTCAAACAA
* * * * *
140192 GAATGAAAAGAGTTGGACTAGGGCGAGAACCATTATGTCAAACAA
1 GAATGAAAAGAGTTTGACCAAGGCGAGAACCATCACGTCAAACAA
* *
140237 GAATGAAAAGAGTTTGACCAAGGCAAGAACCATCACGTCAAA-TA
1 GAATGAAAAGAGTTTGACCAAGGCGAGAACCATCACGTCAAACAA
*
140281 GTAGTGAAAAGAGTTTGACCA
1 G-AATGAAAAGAGTTTGACCA
140302 TATACAATCA
Statistics
Matches: 189, Mismatches: 29, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
34 1 0.01
35 20 0.11
36 1 0.01
37 2 0.01
38 1 0.01
40 4 0.02
42 1 0.01
43 2 0.01
44 38 0.20
45 110 0.58
46 9 0.05
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (45 bp):
GAATGAAAAGAGTTTGACCAAGGCGAGAACCATCACGTCAAACAA
Found at i:140250 original size:170 final size:170
Alignment explanation
Indices: 139989--140301 Score: 414
Period size: 170 Copynumber: 1.8 Consensus size: 170
139979 TCAAATGAGG
* * * * * *
139989 ATGAAAAGAGTTTGACTAGGTATAATCAAACGGGAATGAGAAGATGTTTGACCAGGGTGAGAACC
1 ATGAAAAGAGTTTGACTAGATAGAATCAAACCGGAATGAAAAGATGTTGGACCAGGGCGAGAACC
* * * *
140054 ATCACATCAAATAGGAATGAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAACAAG-AATGA
66 ATCACATCAAACAAGAATGAAAGAGTTTGACCAAGGCAAGAACCATCACGTCAAA-AAGTAATGA
*
140118 AAAGGGTTTGACCAAGGCAAGAACCATCACATTAAACCAAA
130 AAAGAGTTTGACCAAGGCAAGAACCATCACATTAAACCAAA
* * * *
140159 ATGAAAAGTGTTTGACTATATAGAATTAAACCGGAATGAAAAGA-GTTGGACTAGGGCGAGAACC
1 ATGAAAAGAGTTTGACTAGATAGAATCAAACCGGAATGAAAAGATGTTGGACCAGGGCGAGAACC
* ** * *
140223 ATTATGTCAAACAAGAATGAAAAGAGTTTGACCAAGGCAAGAACCATCACGTCAAATAGTAGTGA
66 ATCACATCAAACAAGAATG-AAAGAGTTTGACCAAGGCAAGAACCATCACGTCAAAAAGTAATGA
140288 AAAGAGTTTGACCA
130 AAAGAGTTTGACCA
140302 TATACAATCA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
169 33 0.27
170 88 0.73
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (170 bp):
ATGAAAAGAGTTTGACTAGATAGAATCAAACCGGAATGAAAAGATGTTGGACCAGGGCGAGAACC
ATCACATCAAACAAGAATGAAAGAGTTTGACCAAGGCAAGAACCATCACGTCAAAAAGTAATGAA
AAGAGTTTGACCAAGGCAAGAACCATCACATTAAACCAAA
Found at i:140297 original size:125 final size:124
Alignment explanation
Indices: 140067--140314 Score: 345
Period size: 125 Copynumber: 2.0 Consensus size: 124
140057 ACATCAAATA
* *
140067 GGAATGAAAGAGTTTGACCAGGGCGAGAACCATCACGTCAAACAAGAATGAAAAGGGTTTGACCA
1 GGAATGAAAGAGTTGGACCAGGGCGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCA
* * * * *
140132 AGGCAAGAACCATCACATTAAACCAAAATGAAAAGTGTTTGACTATATAGAATTAAACC
66 AGGCAAGAACCATCACATCAAACCAAAATGAAAAGAGTTTGACCATATACAATCAAACC
* * *
140191 GGAATGAAAAGAGTTGGACTAGGGCGAGAACCATTATGTCAAACAAGAATGAAAAGAGTTTGACC
1 GGAATG-AAAGAGTTGGACCAGGGCGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACC
* * * *
140256 AAGGCAAGAACCATCACGTCAAA-TAGTAGTGAAAAGAGTTTGACCATATACAATCAAAC
65 AAGGCAAGAACCATCACATCAAACCA-AAATGAAAAGAGTTTGACCATATACAATCAAAC
140315 AATTAACAGG
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
124 7 0.06
125 101 0.94
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (124 bp):
GGAATGAAAGAGTTGGACCAGGGCGAGAACCATCACGTCAAACAAGAATGAAAAGAGTTTGACCA
AGGCAAGAACCATCACATCAAACCAAAATGAAAAGAGTTTGACCATATACAATCAAACC
Found at i:140614 original size:18 final size:18
Alignment explanation
Indices: 140574--140628 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
140564 TGCAAGAAAT
*
140574 TTCATGATTTGATTTATTC
1 TTCATG-TTTCATTTATTC
140593 TTCATGTTTCATTT-TTC
1 TTCATGTTTCATTTATTC
* *
140610 GTTCATTTTTCATTCATTC
1 -TTCATGTTTCATTTATTC
140629 ATTTTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 19 0.61
19 9 0.29
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCATGTTTCATTTATTC
Found at i:141025 original size:92 final size:92
Alignment explanation
Indices: 140867--141113 Score: 352
Period size: 92 Copynumber: 2.7 Consensus size: 92
140857 CTTATGGTCA
* * * * * * * * *
140867 TGTGATGCATTAGTACTATCTAGTGGCTGAATAAAAGGGATATGATTAGAAATGTGTGGTCGGGA
1 TGTGATGCATCAATACCATCTAGTGGTTGGATAGAGGGGATATGATTAGGAATGTGTGGTCTGGA
* *
140932 TATCCTTGCCCTAAGGAAATTAGGTTT
66 TATCCTTGCCCTAAGGAAATCAGGCTT
*
140959 TGTGATGCATCAATACCATCTAGTGGTTGGATAGAGGGGATATGATTAGGAATGTATGGTCTGGA
1 TGTGATGCATCAATACCATCTAGTGGTTGGATAGAGGGGATATGATTAGGAATGTGTGGTCTGGA
*
141024 TATCCTTGCCTTAAGGAAATCAGGCTT
66 TATCCTTGCCCTAAGGAAATCAGGCTT
*
141051 TGTGATGCATCAATACCATCTAGTGGTTGGAT-GAAGGGGATATGATTGGGAATGTGTGGTCTG
1 TGTGATGCATCAATACCATCTAGTGGTTGGATAG-AGGGGATATGATTAGGAATGTGTGGTCTG
141114 CTCTCTTTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 1 0.01
92 138 0.99
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.32
Consensus pattern (92 bp):
TGTGATGCATCAATACCATCTAGTGGTTGGATAGAGGGGATATGATTAGGAATGTGTGGTCTGGA
TATCCTTGCCCTAAGGAAATCAGGCTT
Found at i:141796 original size:8 final size:8
Alignment explanation
Indices: 141783--141842 Score: 66
Period size: 8 Copynumber: 6.8 Consensus size: 8
141773 TCATCCAATT
141783 TTTTTTTA
1 TTTTTTTA
141791 TTTTTTTA
1 TTTTTTTA
141799 TTTTTTTGA
1 TTTTTTT-A
141808 TTTTTTGTA
1 TTTTTT-TA
141817 TTGTTTGTTTA
1 -T-TTT-TTTA
141828 TATTTTTTA
1 T-TTTTTTA
141837 TTTTTT
1 TTTTTT
141843 GTTTTGTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
8 20 0.43
9 13 0.28
10 6 0.13
11 5 0.11
12 2 0.04
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:141796 original size:9 final size:9
Alignment explanation
Indices: 141782--141842 Score: 70
Period size: 9 Copynumber: 6.7 Consensus size: 9
141772 TTCATCCAAT
141782 TTTTTTTTA
1 TTTTTTTTA
141791 -TTTTTTTA
1 TTTTTTTTA
*
141799 TTTTTTTGA
1 TTTTTTTTA
*
141808 TTTTTTGTA
1 TTTTTTTTA
141817 TTGTTTGTTTA
1 TT-TTT-TTTA
*
141828 TATTTTTTA
1 TTTTTTTTA
141837 TTTTTT
1 TTTTTT
141843 GTTTTGTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 8 0.19
9 25 0.58
10 6 0.14
11 4 0.09
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:141827 original size:29 final size:29
Alignment explanation
Indices: 141795--141855 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
141785 TTTTTATTTT
141795 TTTAT-TTTTTTGATTTTTTGTATTGTTTG
1 TTTATATTTTTT-ATTTTTTGTATTGTTTG
*
141824 TTTATATTTTTTATTTTTTGTTTTGTTTG
1 TTTATATTTTTTATTTTTTGTATTGTTTG
141853 TTT
1 TTT
141856 GTTTGTTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.10, C:0.00, G:0.11, T:0.79
Consensus pattern (29 bp):
TTTATATTTTTTATTTTTTGTATTGTTTG
Found at i:141828 original size:37 final size:37
Alignment explanation
Indices: 141787--141880 Score: 122
Period size: 37 Copynumber: 2.5 Consensus size: 37
141777 CCAATTTTTT
141787 TTTATTTTTTTATTTTTTTGATTT-TTTGTATTGTTTG
1 TTTATTTTTTTATTTTTTTGATTTGTTTGT-TTGTTTG
*
141824 TTTATATTTTTTA-TTTTTTGTTTTGTTTGTTTGTTTG
1 TTTAT-TTTTTTATTTTTTTGATTTGTTTGTTTGTTTG
*
141861 -TTGTTTTTTTATTTTGTTTG
1 TTTATTTTTTTATTTT-TTTG
141881 GGAAAACCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
35 7 0.14
36 6 0.12
37 26 0.51
38 12 0.24
ACGTcount: A:0.09, C:0.00, G:0.13, T:0.79
Consensus pattern (37 bp):
TTTATTTTTTTATTTTTTTGATTTGTTTGTTTGTTTG
Found at i:141864 original size:20 final size:19
Alignment explanation
Indices: 141802--141880 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 19
141792 TTTTTTATTT
141802 TTTTGATTTTTTGTATTGTTTG
1 TTTTG-TTTTTTGT-TTG-TTG
* * *
141824 TTTATATTTTTTATTTTTTG
1 TTT-TGTTTTTTGTTTGTTG
141844 TTTTGTTTGTTTGTTTGTTG
1 TTTTGTTT-TTTGTTTGTTG
*
141864 TTTTTTTATTTTGTTTG
1 TTTTGTT-TTTTGTTTG
141881 GGAAAACCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.09
20 29 0.62
21 3 0.06
22 10 0.21
23 1 0.02
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (19 bp):
TTTTGTTTTTTGTTTGTTG
Found at i:141868 original size:33 final size:34
Alignment explanation
Indices: 141810--141879 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
141800 TTTTTTGATT
141810 TTTTGTATTGTTTGTTTATATTTTTTATT-TTTTG
1 TTTTGTATTGTTTGTTTATATTTTTT-TTATTTTG
*
141844 TTTTGT-TTGTTTGTTTGT-TGTTTTTTTATTTTG
1 TTTTGTATTGTTTGTTTATAT-TTTTTTTATTTTG
141877 TTT
1 TTT
141880 GGGAAAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 3 0.09
33 24 0.73
34 6 0.18
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (34 bp):
TTTTGTATTGTTTGTTTATATTTTTTTTATTTTG
Found at i:145755 original size:79 final size:78
Alignment explanation
Indices: 145602--145792 Score: 215
Period size: 79 Copynumber: 2.4 Consensus size: 78
145592 AAAATTTAAT
* ** * * * *
145602 ATTTTGGAGATAAAAATGTGGTTGGAGTATCCCTTCGAAACTAACAGGGTTAGAGTATCCTCGAT
1 ATTTTGGAAATAAAACCG-GGTTGAAGTATCCCTTAGAAACTAACAGGGTTAGAGTATCCCCAAT
* * *
145667 TGTAGAAAATCGAT
65 TATAGAAAATCAAC
* *
145681 GTTTTGGAAATAAAACCGAGGTTGAAGTATCCCTTTAGAAA-TAACGGGGTTAGAGTATCCCCAA
1 ATTTTGGAAATAAAACCG-GGTTGAAGTATCCC-TTAGAAACTAACAGGGTTAGAGTATCCCCAA
145745 TTAT-GAAAAATCAAC
64 TTATAG-AAAATCAAC
145760 ATTTTGGAAATAAAACCGGGATTGAAGTATCCC
1 ATTTTGGAAATAAAACCGGG-TTGAAGTATCCC
145793 CGATGGTGGA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 86 0.91
80 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (78 bp):
ATTTTGGAAATAAAACCGGGTTGAAGTATCCCTTAGAAACTAACAGGGTTAGAGTATCCCCAATT
ATAGAAAATCAAC
Found at i:146072 original size:80 final size:79
Alignment explanation
Indices: 145837--146072 Score: 266
Period size: 79 Copynumber: 3.0 Consensus size: 79
145827 TGATCCCTTC
* * * * *
145837 GAAAATAACAGGGTTAGAGTATCCCCAATTGT-AAAAAATCGGTAGTTTAGAAATAAAACCAGGG
1 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGAT-GTTTAGAAATAAAACTAGGG
*
145901 TTGGAGTATCCTCTC
65 TTGGAGTATCCTCTA
* * * *
145916 GAAAATAACGGGGTTGGAGTATCCCCGGA-AGTG-GAAAATC-AGTGCTTTAGAAATAAAATTGG
1 GAAAATAACGGGGTTGGAGTATCCCC-GATTGTGAAAAAATCGA-TG-TTTAGAAATAAAACTAG
*
145978 GGTTAGAGTATCCTCTTA
63 GGTTGGAGTATCCTC-TA
* *
145996 G-AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATGTTTTGGAAATAAAACTAGGG
1 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATG-TTTAGAAATAAAACTAGGG
146060 TTGGAGTATCCTC
65 TTGGAGTATCCTC
146073 GATGGTGAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
78 3 0.02
79 87 0.67
80 39 0.30
81 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (79 bp):
GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATGTTTAGAAATAAAACTAGGGT
TGGAGTATCCTCTA
Found at i:146085 original size:131 final size:129
Alignment explanation
Indices: 145926--146318 Score: 486
Period size: 130 Copynumber: 3.0 Consensus size: 129
145916 GAAAATAACG
* * * * * **
145926 GGGTTGGAGTATCCCCGGA-AGTGGAAAATC-AGTGCTTTAGAAATAAAATTGGGGTTAGAGTAT
1 GGGTTGGAGTATCCAC-GATGGTGGAAAATCGA-TGTTTTGGAATTAAAACCGGGGTTAGAGTAT
145989 CCTCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATGTTTTGGAAATAAAA
64 CC-CTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTG-AAAAATCGATGTTTTGGAAATAAAA
146054 CTA
127 CTA
* * * * *
146057 GGGTTGGAGTATCCTCGATGGTGAAAAATTGATTTTTTGGAATTAAAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGGAATTAAAACCGGGGTTAGAGTAT-C
* * * * * * *
146122 CCTTGGAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGAAAATAAAACTG
65 CCTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTA
*
146187 GGGTTGGAATATCCACGATGGTGGAAAATCGATGTTTTGGAATTAAAACCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGGAATTAAAACCGGGGTTAGAGTATCC
* * * * *
146252 CTTCAAAAATAATGGGGTTAGAGTATCCCCGATTGTGAAAAGTCGATGGTATGGAAATAAAA-TA
66 CTT-AGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTA
146316 GGG
1 GGG
146319 GTTGCAGTTT
Statistics
Matches: 222, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
129 9 0.04
130 129 0.58
131 81 0.36
132 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (129 bp):
GGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGGAATTAAAACCGGGGTTAGAGTATCC
CTTAGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAACTA
Found at i:146105 original size:51 final size:52
Alignment explanation
Indices: 146005--146123 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
145995 AGAAATAATG
* *
146005 GGGTTGGAGTATCCCCGATTGTGAAAAAATCGATGTTTTGGAAATAAAACTA
1 GGGTTGGAGTATCCCCGATGGTGAAAAAATCGATGTTTTGGAAATAAAACCA
* * * * *
146057 GGGTTGGAGTATCCTCGATGGTG-AAAAATTGATTTTTTGGAATTAAAACCG
1 GGGTTGGAGTATCCCCGATGGTGAAAAAATCGATGTTTTGGAAATAAAACCA
146108 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
146124 TTGGAAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 38 0.64
52 21 0.36
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (52 bp):
GGGTTGGAGTATCCCCGATGGTGAAAAAATCGATGTTTTGGAAATAAAACCA
Found at i:146206 original size:51 final size:51
Alignment explanation
Indices: 146134--146251 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
146124 TTGGAAATAA
* * *
146134 TGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGAAAATAAAAC
1 TGGGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGAAAATAAAAC
* * *
146185 TGGGGTTGGAATATCCACGATGGTGGAAAATCGATGTTTTGGAATTAAAAC
1 TGGGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGAAAATAAAAC
* *
146236 CGGGGTTAGAGTATCC
1 TGGGGTTGGAGTATCC
146252 CTTCAAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCACGATGGTGGAAAATCGATGTTTTGAAAATAAAAC
Found at i:148725 original size:50 final size:49
Alignment explanation
Indices: 148671--148805 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 49
148661 AAAAATGCCT
* * *
148671 GAATGTATCGATACATTAAGAAATGTATCGGTACATCTGGGTAAAACCTA
1 GAATGTATCGATACATGAA-AAATGTATCGATACATCTGGGTAAAACCCA
* *
148721 GAATGTATCGATACAATGAACAATGTATCGATACATCTGGGTGAAACCCA
1 GAATGTATCGATAC-ATGAAAAATGTATCGATACATCTGGGTAAAACCCA
*
148771 GAATGTATCGATACAATGAACAATGTATCGATACA
1 GAATGTATCGATAC-ATGAAAAATGTATCGATACA
148806 AATTGTGAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 75 0.95
51 4 0.05
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (49 bp):
GAATGTATCGATACATGAAAAATGTATCGATACATCTGGGTAAAACCCA
Found at i:148814 original size:24 final size:20
Alignment explanation
Indices: 148722--148806 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
148712 TAAAACCTAG
148722 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
148742 AATGTATCGATACATCTGGGTGAAACCC
1 AATGTATCGATACA-----ATG-AA--C
148770 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
148792 AATGTATCGATACAA
1 AATGTATCGATACAA
148807 ATTGTGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
20 29 0.55
22 1 0.02
24 2 0.04
25 4 0.08
26 2 0.04
28 1 0.02
30 14 0.26
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:159415 original size:11 final size:11
Alignment explanation
Indices: 159370--159417 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
159360 TAATTTTTCT
159370 TTTTTTCTC-C
1 TTTTTTCTCTC
159380 TTTTTT-TCTC
1 TTTTTTCTCTC
* *
159390 TTTCTT-TGT-
1 TTTTTTCTCTC
159399 TTTTTTCTCTC
1 TTTTTTCTCTC
159410 TTTTTTCT
1 TTTTTTCT
159418 TCACTTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:161087 original size:16 final size:16
Alignment explanation
Indices: 161062--161098 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
161052 CCACCTGGTG
*
161062 GAAGTTAACCTCCATC
1 GAAGTCAACCTCCATC
161078 GAAGTCAACCTCCATC
1 GAAGTCAACCTCCATC
*
161094 TAAGT
1 GAAGT
161099 GGCCACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (16 bp):
GAAGTCAACCTCCATC
Found at i:162515 original size:32 final size:32
Alignment explanation
Indices: 162478--162629 Score: 112
Period size: 32 Copynumber: 4.7 Consensus size: 32
162468 CATGACTACT
*
162478 TGCTAACAATTATAACATATTAGTAGCGTC-TA
1 TGCTAACTATTATAACATATTAGTAG-GTCATA
* * * *
162510 TGCTAACTATTCTAACCTATTAAT-GAGTCGTA
1 TGCTAACTATTATAACATATTAGTAG-GTCATA
* * *
162542 TACTAACTATTATAACTTATTAGTGAGG-CTTA
1 TGCTAACTATTATAACATATTAGT-AGGTCATA
* * * *
162574 TGCTAATTATTATAACCTATTAGCAGGGCCATA
1 TGCTAACTATTATAACATATTAGTA-GGTCATA
* * *
162607 TGCTAACAATTTTAACACATTAG
1 TGCTAACTATTATAACATATTAG
162630 CAAGGCTTAT
Statistics
Matches: 95, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
31 5 0.05
32 67 0.71
33 22 0.23
34 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
TGCTAACTATTATAACATATTAGTAGGTCATA
Done.